Off topic:Bioconductor: ALL dataset, correct syntax using the exprs call?
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5.7 years ago
oars ▴ 200

Hello - I'm new to the bioconductor suite and still don't quite understand how to invoke the exprs class. For example, let's say I'm trying to find genes within the ALL dataset with the most and the least significant effect on age. I've been able to write snippets to find the min/max exprs (expression level) within the set...

> min(exprs(ALL))
[1] 1.984919
> max(exprs(ALL))
[1] 14.12657

...but cannot seem to write a snippet that maps that min/max value to the actual gene?

As for assessing how age effects exprs, this is tricky. Each patient obviously has an age (which is a column) and also an expression level (which as I understand is a class) that maps back to a specific gene. As a start - I thought I'd just plot them but again I'm having trouble with the syntax, I've tried the following from what I've read on the web but to no avail...

> plot(exprs,age(ALL))

and...

> plot(exprs~age(ALL))

Error in age(ALL) : could not find function "age"

Anyone see a glaring problem?

Bioconductor Biobase R exprs ALL • 2.6k views
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